1RER

Crystal structure of the homotrimer of fusion glycoprotein E1 from Semliki Forest Virus.

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1rera1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	Class II viral fusion proteins C-terminal domain	Fusion glycoprotein E1	(Semliki Forest virus ) [TaxId: 11033 ],	SCOPe (2.08)
A	d1rera2	Membrane and cell surface proteins and peptides	Viral glycoprotein, central and dimerisation domains	Viral glycoprotein, central and dimerisation domains	Viral glycoprotein, central and dimerisation domains	Fusion glycoprotein E1	(Semliki Forest virus ) [TaxId: 11033 ],	SCOPe (2.08)
B	d1rerb1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	Class II viral fusion proteins C-terminal domain	Fusion glycoprotein E1	(Semliki Forest virus ) [TaxId: 11033 ],	SCOPe (2.08)
B	d1rerb2	Membrane and cell surface proteins and peptides	Viral glycoprotein, central and dimerisation domains	Viral glycoprotein, central and dimerisation domains	Viral glycoprotein, central and dimerisation domains	Fusion glycoprotein E1	(Semliki Forest virus ) [TaxId: 11033 ],	SCOPe (2.08)
C	d1rerc1	All beta proteins	Immunoglobulin-like beta-sandwich	E set domains	Class II viral fusion proteins C-terminal domain	Fusion glycoprotein E1	(Semliki Forest virus ) [TaxId: 11033 ],	SCOPe (2.08)
C	d1rerc2	Membrane and cell surface proteins and peptides	Viral glycoprotein, central and dimerisation domains	Viral glycoprotein, central and dimerisation domains	Viral glycoprotein, central and dimerisation domains	Fusion glycoprotein E1	(Semliki Forest virus ) [TaxId: 11033 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Viral glycoprotein central and dimerisation domains	8037191	3000293	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	E set domains	8054997	3000070	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Viral glycoprotein central and dimerisation domains	8037191	3000293	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	E set domains	8054997	3000070	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Viral glycoprotein central and dimerisation domains	8037191	3000293	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	E set domains	8054997	3000070	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Alpha_E1_glycop_2nd	e1rerA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Alpha_E1_glycop_2nd	ECOD (1.6)
A	Alpha_E1_glycop_1st	e1rerA2	A: beta complex topology	X: Viral glycoprotein, central and dimerisation domains-like	H: Viral glycoprotein, central and dimerisation domains (From Topology)	T: Viral glycoprotein, central and dimerisation domains	F: Alpha_E1_glycop_1st	ECOD (1.6)
B	Alpha_E1_glycop_2nd	e1rerB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Alpha_E1_glycop_2nd	ECOD (1.6)
B	Alpha_E1_glycop_1st	e1rerB2	A: beta complex topology	X: Viral glycoprotein, central and dimerisation domains-like	H: Viral glycoprotein, central and dimerisation domains (From Topology)	T: Viral glycoprotein, central and dimerisation domains	F: Alpha_E1_glycop_1st	ECOD (1.6)
C	Alpha_E1_glycop_2nd	e1rerC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Alpha_E1_glycop_2nd	ECOD (1.6)
C	Alpha_E1_glycop_1st	e1rerC2	A: beta complex topology	X: Viral glycoprotein, central and dimerisation domains-like	H: Viral glycoprotein, central and dimerisation domains (From Topology)	T: Viral glycoprotein, central and dimerisation domains	F: Alpha_E1_glycop_1st	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.98.10	Mainly Beta	Sandwich	Tick-borne Encephalitis virus Glycoprotein	domain 1	CATH (4.3.0)
A	2.60.40.350	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
B	2.60.98.10	Mainly Beta	Sandwich	Tick-borne Encephalitis virus Glycoprotein	domain 1	CATH (4.3.0)
B	2.60.40.350	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)
C	2.60.98.10	Mainly Beta	Sandwich	Tick-borne Encephalitis virus Glycoprotein	domain 1	CATH (4.3.0)
C	2.60.40.350	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF01589	Alphavirus E1 glycoprotein (Alpha_E1_glycop)	Alphavirus E1 glycoprotein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Structural polyprotein	peptidase activity catalytic activity, acting on a protein serine hydrolase activity serine-type peptidase activity hydrolase activity serine-type endopeptidase activity catalytic activity endopeptidase activity RNA binding binding organic cyclic compound binding nucleic acid binding small molecule binding structural molecule activity	viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion assembly viral life cycle import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization viral process fusion of virus membrane with host endosome membrane membrane fusion involved in viral entry into host cell virion assembly viral life cycle import into cell receptor-mediated endocytosis of virus by host cell biological process involved in interspecies interaction between organisms transport establishment of localization vesicle-mediated transport biological process involved in interaction with host biological process involved in symbiotic interaction localization symbiont entry into host cell clathrin-dependent endocytosis symbiont entry into host cellular process clathrin-dependent endocytosis of virus by host cell receptor-mediated endocytosis endocytosis endocytosis involved in viral entry into host cell transport of virus virion attachment to host cell adhesion of symbiont to host cell adhesion of symbiont to host symbiont-mediated perturbation of host cellular process response to stimulus response to biotic stimulus symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response response to host immune response symbiont-mediated suppression of host defenses symbiont-mediated perturbation of host innate immune response response to host response to external biotic stimulus symbiont-mediated perturbation of host signal transduction pathway modulation of process of another organism symbiont-mediated perturbation of host defense response response to host defenses response to other organism symbiont-mediated perturbation of host immune response response to defenses of other organism symbiont-mediated perturbation of host defenses response to external stimulus symbiont-mediated suppression of host signal transduction pathway modulation by symbiont of host process symbiont-mediated suppression of host toll-like receptor signaling pathway organic substance metabolic process organonitrogen compound metabolic process proteolysis metabolic process primary metabolic process protein metabolic process macromolecule metabolic process	membrane cellular anatomical entity host cell plasma membrane host cellular component host cell part host cell membrane virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host intracellular part host cell cytoplasm membrane cellular anatomical entity host cell plasma membrane host cellular component host cell part host cell membrane virion component virion membrane viral capsid icosahedral viral capsid T=4 icosahedral viral capsid host intracellular membrane-bounded organelle host intracellular part host cell cytoplasm host cell endosome host intracellular region host cell cytoplasm part host intracellular organelle host cell nucleus viral membrane viral envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR002533	Alphavirus E3 spike glycoprotein	Domain
A, B, C	IPR038055	Flaviviral glycoprotein E, dimerisation domain	Homologous Superfamily
A, B, C	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A, B, C	IPR042304	Alphavirus E2 glycoprotein, domain A	Homologous Superfamily
A, B, C	IPR036253	Flavivirus glycoprotein, central and dimerisation domain superfamily	Homologous Superfamily
A, B, C	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, B, C	IPR042305	Alphavirus E2 glycoprotein, domain B	Homologous Superfamily
A, B, C	IPR042306	Alphavirus E2 glycoprotein, domain C	Homologous Superfamily
A, B, C	IPR000936	Alphavirus E2 glycoprotein	Family
A, B, C	IPR000930	Peptidase S3, togavirin	Domain
A, B, C	IPR002548	Alphavirus E1 glycoprotein	Domain
A, B, C	IPR000336	Flavivirus/Alphavirus glycoprotein, immunoglobulin-like domain superfamily	Homologous Superfamily
A, B, C	IPR043504	Peptidase S1, PA clan, chymotrypsin-like fold	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C	OPM	Transmembrane	Bitopic proteins	Viral membrane fusion glycoprotein	Alphavirus E1 glycoprotein

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.